From 69f6158cd35d8803a33715f1b5c3a9128dbf08ed Mon Sep 17 00:00:00 2001 From: GitHub Actions Date: Tue, 19 Mar 2024 00:29:07 +0000 Subject: [PATCH] markdown source builds Auto-generated via {sandpaper} Source : 0c3ea6fa872d33bb6824dcf40150a024d0951537 Branch : main Author : Craig Gross Time : 2024-02-20 00:30:44 +0000 Message : Update for RStudio Server and R/4.2.1 --- config.yaml | 83 +++++++++++ renv.lock | 409 ++++++++++++++++++++++++++++++++++++++++++++++++++++ 2 files changed, 492 insertions(+) create mode 100644 config.yaml create mode 100644 renv.lock diff --git a/config.yaml b/config.yaml new file mode 100644 index 0000000..7ffc84c --- /dev/null +++ b/config.yaml @@ -0,0 +1,83 @@ +#------------------------------------------------------------ +# Values for this lesson. +#------------------------------------------------------------ + +# Which carpentry is this (swc, dc, lc, or cp)? +# swc: Software Carpentry +# dc: Data Carpentry +# lc: Library Carpentry +# cp: Carpentries (to use for instructor training for instance) +# incubator: The Carpentries Incubator +carpentry: 'swc' + +# Overall title for pages. +title: 'R for the HPCC' + +# Date the lesson was created (YYYY-MM-DD, this is empty by default) +created: '2023-06-30' + +# Comma-separated list of keywords for the lesson +keywords: 'r, hpcc, parallel, cluster, icer' + +# Life cycle stage of the lesson +# possible values: pre-alpha, alpha, beta, stable +life_cycle: 'stable' + +# License of the lesson materials (recommended CC-BY 4.0) +license: 'CC-BY 4.0' + +# Link to the source repository for this lesson +source: 'https://github.com/MSU-ICER/r-for-hpcc' + +# Default branch of your lesson +branch: 'main' + +# Who to contact if there are any issues +contact: 'grosscra@msu.edu' + +# Navigation ------------------------------------------------ +# +# Use the following menu items to specify the order of +# individual pages in each dropdown section. Leave blank to +# include all pages in the folder. +# +# Example ------------- +# +# episodes: +# - introduction.md +# - first-steps.md +# +# learners: +# - setup.md +# +# instructors: +# - instructor-notes.md +# +# profiles: +# - one-learner.md +# - another-learner.md + +# Order of episodes in your lesson +episodes: +- rstudio-server-ondemand.Rmd +- managing-r-env-packages.Rmd +- parallelizing-r-code.Rmd +- r-command-line.Rmd +- r-slurm-jobs.Rmd + +# Information for Learners +learners: +- rstudio-ondemand.Rmd + +# Information for Instructors +instructors: + +# Learner Profiles +profiles: + +# Customisation --------------------------------------------- +# +# This space below is where custom yaml items (e.g. pinning +# sandpaper and varnish versions) should live + +varnish: MSU-ICER/varnish@icer diff --git a/renv.lock b/renv.lock new file mode 100644 index 0000000..5933c53 --- /dev/null +++ b/renv.lock @@ -0,0 +1,409 @@ +{ + "R": { + "Version": "4.3.3", + "Repositories": [ + { + "Name": "carpentries", + "URL": "https://carpentries.r-universe.dev" + }, + { + "Name": "carpentries_archive", + "URL": "https://carpentries.github.io/drat" + }, + { + "Name": "CRAN", + "URL": "https://cran.rstudio.com" + } + ] + }, + "Packages": { + "R6": { + "Package": "R6", + "Version": "2.5.1", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R" + ], + "Hash": "470851b6d5d0ac559e9d01bb352b4021" + }, + "base64enc": { + "Package": "base64enc", + "Version": "0.1-3", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R" + ], + "Hash": "543776ae6848fde2f48ff3816d0628bc" + }, + "bslib": { + "Package": "bslib", + "Version": "0.4.2", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "base64enc", + "cachem", + "grDevices", + "htmltools", + "jquerylib", + "jsonlite", + "memoise", + "mime", + "rlang", + "sass" + ], + "Hash": "a7fbf03946ad741129dc81098722fca1" + }, + "cachem": { + "Package": "cachem", + "Version": "1.0.8", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "fastmap", + "rlang" + ], + "Hash": "c35768291560ce302c0a6589f92e837d" + }, + "cli": { + "Package": "cli", + "Version": "3.6.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "utils" + ], + "Hash": "89e6d8219950eac806ae0c489052048a" + }, + "digest": { + "Package": "digest", + "Version": "0.6.31", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "utils" + ], + "Hash": "8b708f296afd9ae69f450f9640be8990" + }, + "ellipsis": { + "Package": "ellipsis", + "Version": "0.3.2", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "rlang" + ], + "Hash": "bb0eec2fe32e88d9e2836c2f73ea2077" + }, + "evaluate": { + "Package": "evaluate", + "Version": "0.20", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "methods" + ], + "Hash": "4b68aa51edd89a0e044a66e75ae3cc6c" + }, + "fastmap": { + "Package": "fastmap", + "Version": "1.1.1", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "f7736a18de97dea803bde0a2daaafb27" + }, + "fontawesome": { + "Package": "fontawesome", + "Version": "0.5.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "htmltools", + "rlang" + ], + "Hash": "1e22b8cabbad1eae951a75e9f8b52378" + }, + "fs": { + "Package": "fs", + "Version": "1.6.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "methods" + ], + "Hash": "94af08e0aa9675a16fadbb3aaaa90d2a" + }, + "glue": { + "Package": "glue", + "Version": "1.6.2", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "methods" + ], + "Hash": "4f2596dfb05dac67b9dc558e5c6fba2e" + }, + "highr": { + "Package": "highr", + "Version": "0.10", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "xfun" + ], + "Hash": "06230136b2d2b9ba5805e1963fa6e890" + }, + "htmltools": { + "Package": "htmltools", + "Version": "0.5.5", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "base64enc", + "digest", + "ellipsis", + "fastmap", + "grDevices", + "rlang", + "utils" + ], + "Hash": "ba0240784ad50a62165058a27459304a" + }, + "jquerylib": { + "Package": "jquerylib", + "Version": "0.1.4", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "htmltools" + ], + "Hash": "5aab57a3bd297eee1c1d862735972182" + }, + "jsonlite": { + "Package": "jsonlite", + "Version": "1.8.4", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "methods" + ], + "Hash": "a4269a09a9b865579b2635c77e572374" + }, + "knitr": { + "Package": "knitr", + "Version": "1.42", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "evaluate", + "highr", + "methods", + "tools", + "xfun", + "yaml" + ], + "Hash": "8329a9bcc82943c8069104d4be3ee22d" + }, + "lifecycle": { + "Package": "lifecycle", + "Version": "1.0.3", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "cli", + "glue", + "rlang" + ], + "Hash": "001cecbeac1cff9301bdc3775ee46a86" + }, + "magrittr": { + "Package": "magrittr", + "Version": "2.0.3", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R" + ], + "Hash": "7ce2733a9826b3aeb1775d56fd305472" + }, + "memoise": { + "Package": "memoise", + "Version": "2.0.1", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "cachem", + "rlang" + ], + "Hash": "e2817ccf4a065c5d9d7f2cfbe7c1d78c" + }, + "mime": { + "Package": "mime", + "Version": "0.12", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "tools" + ], + "Hash": "18e9c28c1d3ca1560ce30658b22ce104" + }, + "rappdirs": { + "Package": "rappdirs", + "Version": "0.3.3", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R" + ], + "Hash": "5e3c5dc0b071b21fa128676560dbe94d" + }, + "renv": { + "Package": "renv", + "Version": "0.17.3", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "utils" + ], + "Hash": "4543b8cd233ae25c6aba8548be9e747e" + }, + "rlang": { + "Package": "rlang", + "Version": "1.1.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "utils" + ], + "Hash": "a85c767b55f0bf9b7ad16c6d7baee5bb" + }, + "rmarkdown": { + "Package": "rmarkdown", + "Version": "2.21", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "bslib", + "evaluate", + "fontawesome", + "htmltools", + "jquerylib", + "jsonlite", + "knitr", + "methods", + "stringr", + "tinytex", + "tools", + "utils", + "xfun", + "yaml" + ], + "Hash": "493df4ae51e2e984952ea4d5c75786a3" + }, + "sass": { + "Package": "sass", + "Version": "0.4.5", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R6", + "fs", + "htmltools", + "rappdirs", + "rlang" + ], + "Hash": "2bb4371a4c80115518261866eab6ab11" + }, + "stringi": { + "Package": "stringi", + "Version": "1.7.12", + "Source": "Repository", + "RemoteType": "repository", + "RemoteUrl": "https://github.com/gagolews/stringi", + "RemoteRef": "v1.7.12", + "RemoteSha": "e4cf3176bc3943e6c477885be3445cbbd7d4bab6", + "Requirements": [ + "R", + "stats", + "tools", + "utils" + ], + "Hash": "832ef2a01603f8f5b4f2af024080d5d9" + }, + "stringr": { + "Package": "stringr", + "Version": "1.5.0", + "Source": "Repository", + "Repository": "RSPM", + "Requirements": [ + "R", + "cli", + "glue", + "lifecycle", + "magrittr", + "rlang", + "stringi", + "vctrs" + ], + "Hash": "671a4d384ae9d32fc47a14e98bfa3dc8" + }, + "tinytex": { + "Package": "tinytex", + "Version": "0.45", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "xfun" + ], + "Hash": "e4e357f28c2edff493936b6cb30c3d65" + }, + "vctrs": { + "Package": "vctrs", + "Version": "0.6.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "glue", + "lifecycle", + "rlang" + ], + "Hash": "a745bda7aff4734c17294bb41d4e4607" + }, + "xfun": { + "Package": "xfun", + "Version": "0.39", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "stats", + "tools" + ], + "Hash": "8f56e9acb54fb525e66464d57ab58bcb" + }, + "yaml": { + "Package": "yaml", + "Version": "2.3.7", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "0d0056cc5383fbc240ccd0cb584bf436" + } + } +}